ArticleNucleic acids research2007
VNTRDB: a bacterial variable number tandem repeat locus database.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Variable number tandem repeats of a 9-base insertion in the N-terminal domain of severe acute respiratory syndrome coronavirus 2 spike gene.Frontiers in microbiology · 2022Article
- Article
- MLVA typing ofIranian journal of microbiology · 2018Article
- PTGBase: an integrated database to study tandem duplicated genes in plants.Database : the journal of biological databases and curation · 2015Article
- Ascertaining the relationship between Salmonella Typhimurium and Salmonella 4,[5],12:i:- by MLVA and inferring the sources of human salmonellosis due to the two serovars in Italy.Frontiers in microbiology · 2015Article
- Population typing of the causal agent of cassava bacterial blight in the Eastern Plains of Colombia using two types of molecular markers.BMC microbiology · 2014Article
- MICdb3.0: a comprehensive resource of microsatellite repeats from prokaryotic genomes.Database : the journal of biological databases and curation · 2014Article
- Comparison of PCR ribotyping and multilocus variable-number tandem-repeat analysis (MLVA) for improved detection of Clostridium difficile.BMC microbiology · 2011Article
- Small variable segments constitute a major type of diversity of bacterial genomes at the species level.Genome biology · 2010Article
- Multilocus variable-number tandem repeat analysis for molecular typing and phylogenetic analysis of Shigella flexneri.BMC microbiology · 2009Article
- Genetic structure and distribution of the colibactin genomic island among members of the family Enterobacteriaceae.Infection and immunity · 2009Article
- Multilocus variable-number tandem-repeat analysis for molecular typing of Shigella sonnei.Journal of clinical microbiology · 2007Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Variable number tandem repeat-PCR (VNTR-PCR) is a novel method developed for molecular typing of microorganisms. This method has proven useful in epidemiological studies in medical microbiology. Although hundreds of bacterial genomes have been sequenced, variable number tandem repeats (TRs) derived from comparative genome analyses are scarce. This may hamper their application to the surveillance of bacteria in molecular epidemiology. Here, we present a freely accessible variable number tandem repeat database (VNTRDB) that is intended to be a resource for helping in the discovery of putatively polymorphic tandem repeat loci and to aid with assay design by providing the flanking sequences that can be used in subsequent PCR primer design. In order to reveal possible polymorphism, each TR locus was obtained by comparing the sequences between different sets of bacterial genera, species or strains. Through this comparison, TRs which are unique to a genus can also be identified. Moreover, a visualization tool is provided to ensure that the copy number and locus length of repeats are correct. The VNTRDB is available at http://vntr.csie.ntu.edu.tw/.
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